ATE316152T1 - COMPLEXITY MANAGEMENT AND ANALYSIS OF GENOMIC DNA - Google Patents

COMPLEXITY MANAGEMENT AND ANALYSIS OF GENOMIC DNA

Info

Publication number
ATE316152T1
ATE316152T1 AT99965737T AT99965737T ATE316152T1 AT E316152 T1 ATE316152 T1 AT E316152T1 AT 99965737 T AT99965737 T AT 99965737T AT 99965737 T AT99965737 T AT 99965737T AT E316152 T1 ATE316152 T1 AT E316152T1
Authority
AT
Austria
Prior art keywords
analysis
genomic dna
sample
invention further
further provides
Prior art date
Application number
AT99965737T
Other languages
German (de)
Inventor
Shoulian Dong
Robert J Lipshutz
David J Lockhart
Original Assignee
Affymetrix Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Affymetrix Inc filed Critical Affymetrix Inc
Application granted granted Critical
Publication of ATE316152T1 publication Critical patent/ATE316152T1/en

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6853—Nucleic acid amplification reactions using modified primers or templates
    • C12Q1/6855—Ligating adaptors
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6858—Allele-specific amplification
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/156—Polymorphic or mutational markers
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10S—TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10S977/00—Nanotechnology
    • Y10S977/902—Specified use of nanostructure
    • Y10S977/904—Specified use of nanostructure for medical, immunological, body treatment, or diagnosis
    • Y10S977/924—Specified use of nanostructure for medical, immunological, body treatment, or diagnosis using nanostructure as support of dna analysis

Abstract

The present invention provides for novel methods of sample preparation and analysis involving reproducibly reducing the complexity of a nucleic sample. The invention further provides for analysis of the above sample by hybridization to an array which may be specifically designed to interrogate the desired fragments for particular characteristics, such as, for example, the presence or absence of a polymorphism. The invention further provides for novel methods of using a computer system to model enzymatic reactions in order to determine experimental conditions before conducting actual experiments.
AT99965737T 1998-10-27 1999-10-27 COMPLEXITY MANAGEMENT AND ANALYSIS OF GENOMIC DNA ATE316152T1 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US10586798P 1998-10-27 1998-10-27
US13612599P 1999-05-26 1999-05-26

Publications (1)

Publication Number Publication Date
ATE316152T1 true ATE316152T1 (en) 2006-02-15

Family

ID=26803034

Family Applications (1)

Application Number Title Priority Date Filing Date
AT99965737T ATE316152T1 (en) 1998-10-27 1999-10-27 COMPLEXITY MANAGEMENT AND ANALYSIS OF GENOMIC DNA

Country Status (8)

Country Link
US (3) US6361947B1 (en)
EP (1) EP1124990B1 (en)
JP (1) JP2002528096A (en)
AT (1) ATE316152T1 (en)
AU (1) AU2144000A (en)
CA (1) CA2345441A1 (en)
DE (1) DE69929542T2 (en)
WO (1) WO2000024939A1 (en)

Families Citing this family (178)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6974666B1 (en) * 1994-10-21 2005-12-13 Appymetric, Inc. Methods of enzymatic discrimination enhancement and surface-bound double-stranded DNA
DK1032705T3 (en) 1997-10-30 2012-03-26 Cold Spring Harbor Lab Probe arrays and methods for using probe arrays to distinguish DNA
US6703228B1 (en) * 1998-09-25 2004-03-09 Massachusetts Institute Of Technology Methods and products related to genotyping and DNA analysis
AU779231B2 (en) * 1999-02-22 2005-01-13 Lynx Therapeutics, Inc. Polymorphic DNA fragments and uses thereof
US20060275782A1 (en) 1999-04-20 2006-12-07 Illumina, Inc. Detection of nucleic acid reactions on bead arrays
US20020119448A1 (en) * 1999-06-23 2002-08-29 Joseph A. Sorge Methods of enriching for and identifying polymorphisms
US6958225B2 (en) 1999-10-27 2005-10-25 Affymetrix, Inc. Complexity management of genomic DNA
CA2396320A1 (en) * 2000-01-11 2001-07-19 Maxygen, Inc. Integrated systems and methods for diversity generation and screening
US20040014056A1 (en) * 2000-05-02 2004-01-22 Jorg Hager Identification of genetic markers
US20020137043A1 (en) * 2000-08-26 2002-09-26 Nila Patil Method for reducing complexity of nucleic acid samples
US20020055112A1 (en) * 2000-08-26 2002-05-09 Nila Patil Methods for reducing complexity of nucleic acid samples
US20020164634A1 (en) * 2000-08-26 2002-11-07 Perlegen Sciences, Inc. Methods for reducing complexity of nucleic acid samples
AR031640A1 (en) * 2000-12-08 2003-09-24 Applied Research Systems ISOTHERMAL AMPLIFICATION OF NUCLEIC ACIDS IN A SOLID SUPPORT
WO2002061145A2 (en) * 2001-01-31 2002-08-08 Ambion, Inc. Competitive amplification of fractionated targets from multiple nucleic acid samples
WO2002090599A1 (en) * 2001-05-09 2002-11-14 Genetic Id, Inc. Universal microarray system
US20030009294A1 (en) * 2001-06-07 2003-01-09 Jill Cheng Integrated system for gene expression analysis
US7297778B2 (en) * 2001-07-25 2007-11-20 Affymetrix, Inc. Complexity management of genomic DNA
US6872529B2 (en) * 2001-07-25 2005-03-29 Affymetrix, Inc. Complexity management of genomic DNA
AU2002357249A1 (en) * 2001-12-13 2003-07-09 Blue Heron Biotechnology, Inc. Methods for removal of double-stranded oligonucleotides containing sequence errors using mismatch recognition proteins
AU2002357368A1 (en) * 2001-12-19 2003-07-09 Affymetrix, Inc. Array plates and method for constructing array plates
DE10208333A1 (en) * 2002-02-27 2003-09-04 Axaron Bioscience Ag Analysis of nucleic acid fragment mixtures
JP4274948B2 (en) 2002-03-13 2009-06-10 シンジェンタ・パティシペーションズ・アクチェンゲゼルシャフト Nucleic acid detection method
US20070065816A1 (en) * 2002-05-17 2007-03-22 Affymetrix, Inc. Methods for genotyping
US9388459B2 (en) 2002-06-17 2016-07-12 Affymetrix, Inc. Methods for genotyping
US7097976B2 (en) 2002-06-17 2006-08-29 Affymetrix, Inc. Methods of analysis of allelic imbalance
US20040072217A1 (en) * 2002-06-17 2004-04-15 Affymetrix, Inc. Methods of analysis of linkage disequilibrium
US7108976B2 (en) * 2002-06-17 2006-09-19 Affymetrix, Inc. Complexity management of genomic DNA by locus specific amplification
US7504215B2 (en) 2002-07-12 2009-03-17 Affymetrix, Inc. Nucleic acid labeling methods
WO2004031399A2 (en) * 2002-09-30 2004-04-15 Nimblegen Systems, Inc. Parallel loading of arrays
US20040101894A1 (en) * 2002-10-01 2004-05-27 Thomas Albert Microarrays having multiple oligonucleotides in single array features
US7459273B2 (en) * 2002-10-04 2008-12-02 Affymetrix, Inc. Methods for genotyping selected polymorphism
DE10246824A1 (en) * 2002-10-08 2004-04-22 Axaron Bioscience Ag Analyzing nucleic acid mixture by hybridization to an array, useful e.g. for expression analysis, using sample mixture of labeled restriction fragments of uniform size
US20060127907A1 (en) * 2002-11-07 2006-06-15 Daiichi Pure Chemicals Co., Ltd. Method of detecting gene mutation
US20060133957A1 (en) * 2003-01-17 2006-06-22 Knapp Merrill A Device and method for fragmenting material by hydrodynamic shear
US7833706B2 (en) * 2003-01-30 2010-11-16 Celera Corporation Genetic polymorphisms associated with rheumatoid arthritis, methods of detection and uses thereof
US20040259125A1 (en) * 2003-02-26 2004-12-23 Omni Genetics, Inc. Methods, systems and apparatus for identifying genetic differences in disease and drug response
US20060183132A1 (en) * 2005-02-14 2006-08-17 Perlegen Sciences, Inc. Selection probe amplification
US20090124514A1 (en) * 2003-02-26 2009-05-14 Perlegen Sciences, Inc. Selection probe amplification
JP2009520460A (en) * 2003-03-10 2009-05-28 アプレラ コーポレイション Genetic polymorphism associated with myocardial infarction, detection method and use thereof
JP2009521904A (en) * 2003-03-10 2009-06-11 アプレラ コーポレイション Single nucleotide polymorphism associated with stenosis, detection method and use thereof
US7811794B2 (en) * 2003-03-18 2010-10-12 Celera Corporation Genetic polymorphisms associated with rheumatoid arthritis, methods of detection and uses thereof
US20060134638A1 (en) * 2003-04-02 2006-06-22 Blue Heron Biotechnology, Inc. Error reduction in automated gene synthesis
RU2390561C2 (en) 2003-05-23 2010-05-27 Колд Спринг Харбор Лэборетери Virtual sets of fragments of nucleotide sequences
WO2005000098A2 (en) 2003-06-10 2005-01-06 The Trustees Of Boston University Detection methods for disorders of the lung
AU2004253882B2 (en) * 2003-06-20 2010-06-10 Illumina, Inc. Methods and compositions for whole genome amplification and genotyping
US20040259100A1 (en) * 2003-06-20 2004-12-23 Illumina, Inc. Methods and compositions for whole genome amplification and genotyping
US20050181394A1 (en) * 2003-06-20 2005-08-18 Illumina, Inc. Methods and compositions for whole genome amplification and genotyping
US20050032102A1 (en) * 2003-07-22 2005-02-10 Affymetrix, Inc. Mapping genomic rearrangements
US8114978B2 (en) 2003-08-05 2012-02-14 Affymetrix, Inc. Methods for genotyping selected polymorphism
US20050100911A1 (en) * 2003-08-06 2005-05-12 Perlegen Sciences, Inc. Methods for enriching populations of nucleic acid samples
ES2627048T3 (en) * 2003-10-24 2017-07-26 Aushon Biosystems, Inc. Apparatus and procedure for dispensing fluid, semi-solid and solid samples
US8173785B2 (en) 2003-11-26 2012-05-08 Advandx, Inc. Peptide nucleic acid probes for analysis of certain Staphylococcus species
US20050233354A1 (en) * 2004-01-22 2005-10-20 Affymetrix, Inc. Genotyping degraded or mitochandrial DNA samples
CA2497324A1 (en) * 2004-02-17 2005-08-17 Affymetrix, Inc. Methods for fragmenting and labelling dna
SE0401270D0 (en) * 2004-05-18 2004-05-18 Fredrik Dahl Method for amplifying specific nucleic acids in parallel
EP2290068A3 (en) 2004-05-28 2012-01-04 Asuragen, Inc. Methods and compositions involving microRNA
EP1623996A1 (en) * 2004-08-06 2006-02-08 Deutsches Krebsforschungszentrum Stiftung des öffentlichen Rechts Improved method of selecting a desired protein from a library
EP1647600A3 (en) 2004-09-17 2006-06-28 Affymetrix, Inc. (A US Entity) Methods for identifying biological samples by addition of nucleic acid bar-code tags
EP1645640B1 (en) 2004-10-05 2013-08-21 Affymetrix, Inc. Method for detecting chromosomal translocations
US7682782B2 (en) 2004-10-29 2010-03-23 Affymetrix, Inc. System, method, and product for multiple wavelength detection using single source excitation
EP1652580A1 (en) 2004-10-29 2006-05-03 Affymetrix, Inc. High throughput microarray, package assembly and methods of manufacturing arrays
ES2503765T3 (en) 2004-11-12 2014-10-07 Asuragen, Inc. Procedures and compositions involving miRNA and miRNA inhibitor molecules
US20060166224A1 (en) * 2005-01-24 2006-07-27 Norviel Vernon A Associations using genotypes and phenotypes
JP2008537120A (en) 2005-04-14 2008-09-11 ザ トラスティーズ オブ ボストン ユニバーシティ Diagnosis of lung injury using classification prediction
US20060286571A1 (en) 2005-04-28 2006-12-21 Prometheus Laboratories, Inc. Methods of predicting methotrexate efficacy and toxicity
US7452671B2 (en) * 2005-04-29 2008-11-18 Affymetrix, Inc. Methods for genotyping with selective adaptor ligation
JP5220597B2 (en) 2005-06-23 2013-06-26 キージーン ナムローゼ フェンノートシャップ Method for identifying one or more polymorphisms and methods of use thereof
DK1910562T3 (en) * 2005-06-23 2011-03-21 Keygene Nv Strategies for high throughput identification and detection of polymorphisms
US20070003938A1 (en) * 2005-06-30 2007-01-04 Perlegen Sciences, Inc. Hybridization of genomic nucleic acid without complexity reduction
WO2007005305A1 (en) * 2005-06-30 2007-01-11 Syngenta Participations Ag METHODS FOR SCREENING FOR GENE SPECIFIC HYBRIDIZATION POLYMORPHISMS (GSHPs) AND THEIR USE IN GENETIC MAPPING AND MARKER DEVELOPMENT
GB0514910D0 (en) * 2005-07-20 2005-08-24 Solexa Ltd Method for sequencing a polynucleotide template
GB0514935D0 (en) 2005-07-20 2005-08-24 Solexa Ltd Methods for sequencing a polynucleotide template
ATE453728T1 (en) 2005-09-29 2010-01-15 Keygene Nv HIGH-THROUGHPUT SCREENING OF MUTAGENIZED POPULATIONS
US10316364B2 (en) 2005-09-29 2019-06-11 Keygene N.V. Method for identifying the source of an amplicon
GB0522310D0 (en) 2005-11-01 2005-12-07 Solexa Ltd Methods of preparing libraries of template polynucleotides
GB0524069D0 (en) * 2005-11-25 2006-01-04 Solexa Ltd Preparation of templates for solid phase amplification
US7634363B2 (en) * 2005-12-07 2009-12-15 Affymetrix, Inc. Methods for high throughput genotyping
US11306351B2 (en) 2005-12-21 2022-04-19 Affymetrix, Inc. Methods for genotyping
DK3404114T3 (en) 2005-12-22 2021-06-28 Keygene Nv Method for detecting high throughput AFLP-based polymorphism
DK1987159T4 (en) 2006-02-08 2020-11-16 Illumina Cambridge Ltd PROCEDURE FOR SEQUENCE OF A POLYNUCLEOTID TEMPLATE
EP1999472A2 (en) 2006-03-09 2008-12-10 The Trustees Of Boston University Diagnostic and prognostic methods for lung disorders using gene expression profiles from nose epithelial cells
US7951583B2 (en) * 2006-03-10 2011-05-31 Plc Diagnostics, Inc. Optical scanning system
US9528939B2 (en) 2006-03-10 2016-12-27 Indx Lifecare, Inc. Waveguide-based optical scanning systems
US8288157B2 (en) * 2007-09-12 2012-10-16 Plc Diagnostics, Inc. Waveguide-based optical scanning systems
US9423397B2 (en) 2006-03-10 2016-08-23 Indx Lifecare, Inc. Waveguide-based detection system with scanning light source
US9976192B2 (en) 2006-03-10 2018-05-22 Ldip, Llc Waveguide-based detection system with scanning light source
EP2021503A1 (en) * 2006-03-17 2009-02-11 Solexa Ltd. Isothermal methods for creating clonal single molecule arrays
EP2002017B1 (en) 2006-04-04 2015-06-10 Keygene N.V. High throughput detection of molecular markers based on restriction fragments
EP2049682A2 (en) * 2006-07-31 2009-04-22 Illumina Cambridge Limited Method of library preparation avoiding the formation of adaptor dimers
CA2660286A1 (en) 2006-08-09 2008-02-21 Homestead Clinical Corporation Organ-specific proteins and methods of their use
US7754429B2 (en) 2006-10-06 2010-07-13 Illumina Cambridge Limited Method for pair-wise sequencing a plurity of target polynucleotides
US9845494B2 (en) 2006-10-18 2017-12-19 Affymetrix, Inc. Enzymatic methods for genotyping on arrays
US8026065B2 (en) 2006-11-02 2011-09-27 Yale University Assessment of oocyte competence
US8293684B2 (en) * 2006-11-29 2012-10-23 Exiqon Locked nucleic acid reagents for labelling nucleic acids
EP2121983A2 (en) 2007-02-02 2009-11-25 Illumina Cambridge Limited Methods for indexing samples and sequencing multiple nucleotide templates
EP2152915A2 (en) * 2007-05-14 2010-02-17 Insight Genetics, Inc. Methods of screening nucleic acids for single nucleotide variations
US8200440B2 (en) 2007-05-18 2012-06-12 Affymetrix, Inc. System, method, and computer software product for genotype determination using probe array data
US20080293589A1 (en) * 2007-05-24 2008-11-27 Affymetrix, Inc. Multiplex locus specific amplification
CN102083575B (en) * 2007-06-25 2014-09-17 阿费梅特里克斯公司 Patterned microcodes
EP2173909A1 (en) * 2007-07-26 2010-04-14 Roche Diagnostics GmbH Target preparation for parallel sequencing of complex genomes
US20090093378A1 (en) * 2007-08-29 2009-04-09 Helen Bignell Method for sequencing a polynucleotide template
US8716190B2 (en) 2007-09-14 2014-05-06 Affymetrix, Inc. Amplification and analysis of selected targets on solid supports
US8361714B2 (en) 2007-09-14 2013-01-29 Asuragen, Inc. Micrornas differentially expressed in cervical cancer and uses thereof
US9388457B2 (en) 2007-09-14 2016-07-12 Affymetrix, Inc. Locus specific amplification using array probes
US8124336B2 (en) * 2007-09-26 2012-02-28 Population Genetics Technologies Ltd Methods and compositions for reducing the complexity of a nucleic acid sample
US9074244B2 (en) 2008-03-11 2015-07-07 Affymetrix, Inc. Array-based translocation and rearrangement assays
CN101918597B (en) 2008-03-11 2013-09-18 国立癌中心 Method for measuring chromosome, gene or specific nucleotide sequence copy numbers using SNP array
US8258111B2 (en) 2008-05-08 2012-09-04 The Johns Hopkins University Compositions and methods related to miRNA modulation of neovascularization or angiogenesis
GB2461026B (en) * 2008-06-16 2011-03-09 Plc Diagnostics Inc System and method for nucleic acids sequencing by phased synthesis
US8309306B2 (en) * 2008-11-12 2012-11-13 Nodality, Inc. Detection composition
CN102272334B (en) 2009-01-13 2014-08-20 关键基因股份有限公司 Novel genome sequencing strategies
EP3722810A3 (en) 2009-02-11 2021-01-13 Caris MPI, Inc. Molecular profiling of tumors
EP2408905B1 (en) 2009-03-16 2017-05-10 Pangu Biopharma Limited Compositions and methods comprising histidyl-trna synthetase splice variants having non-canonical biological activities
JP5848236B2 (en) 2009-03-31 2016-01-27 エータイアー ファーマ， インコーポレイテッド Compositions and methods comprising aspartyl tRNA synthetase with non-standard biological activity
JP5757535B2 (en) * 2009-04-29 2015-07-29 ピーエルシー ダイアグノスティクス， インコーポレイテッド Waveguide-based detection system with scanning light source
EP2248914A1 (en) 2009-05-05 2010-11-10 Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. The use of class IIB restriction endonucleases in 2nd generation sequencing applications
GB0912909D0 (en) * 2009-07-23 2009-08-26 Olink Genomics Ab Probes for specific analysis of nucleic acids
US8445201B2 (en) * 2009-07-31 2013-05-21 Affymetrix, Inc. Hybridization device, methods, and system using mixing beads
US20110059453A1 (en) * 2009-08-23 2011-03-10 Affymetrix, Inc. Poly(A) Tail Length Measurement by PCR
LT2669387T (en) 2009-08-25 2016-10-25 Illumina, Inc. Methods for selecting and amplifying polynucleotides
WO2011032040A1 (en) 2009-09-10 2011-03-17 Centrillion Technology Holding Corporation Methods of targeted sequencing
US10174368B2 (en) 2009-09-10 2019-01-08 Centrillion Technology Holdings Corporation Methods and systems for sequencing long nucleic acids
US20160186266A1 (en) 2009-10-27 2016-06-30 Carislife Sciences, Inc. Molecular profiling for personalized medicine
US8501122B2 (en) 2009-12-08 2013-08-06 Affymetrix, Inc. Manufacturing and processing polymer arrays
WO2011071382A1 (en) 2009-12-10 2011-06-16 Keygene N.V. Polymorfphic whole genome profiling
JP5799484B2 (en) * 2009-12-14 2015-10-28 トヨタ自動車株式会社 Probe design method in DNA microarray, DNA microarray having probe designed by the method
US8835358B2 (en) 2009-12-15 2014-09-16 Cellular Research, Inc. Digital counting of individual molecules by stochastic attachment of diverse labels
EP2513333B1 (en) 2009-12-17 2013-10-02 Keygene N.V. Restriction enzyme based whole genome sequencing
GB0922377D0 (en) 2009-12-22 2010-02-03 Arab Gulf University The Mutant LDL receptor
CN103118692A (en) 2010-04-26 2013-05-22 Atyr医药公司 Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of cysteinyl-tRNA synthetase
AU2011248614B2 (en) 2010-04-27 2017-02-16 Pangu Biopharma Limited Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of isoleucyl tRNA synthetases
CN103097524B (en) 2010-04-28 2016-08-03 Atyr医药公司 The innovation for the treatment of, diagnosis and the antibody compositions relevant to the protein fragments of Alanyl-tRNA synthetase finds
US8986680B2 (en) 2010-04-29 2015-03-24 Atyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of Asparaginyl tRNA synthetases
CN103118693B (en) 2010-04-29 2017-05-03 Atyr 医药公司 Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of valyl tRNA synthetases
EP2566495B1 (en) 2010-05-03 2017-03-01 aTyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of phenylalanyl-alpha-trna synthetases
EP2566515B1 (en) 2010-05-03 2017-08-02 aTyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of arginyl-trna synthetases
EP2566496B1 (en) 2010-05-03 2018-02-28 aTyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of methionyl-trna synthetases
AU2011248101B2 (en) 2010-05-04 2016-10-20 Atyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of p38 multi-tRNA synthetase complex
CA2799197C (en) 2010-05-14 2019-10-29 Atyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of phenylalanyl-beta-trna synthetases
EP2575856B1 (en) 2010-05-27 2017-08-16 aTyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of glutaminyl-trna synthetases
EP2575857B1 (en) 2010-06-01 2018-01-24 aTyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of lysyl-trna synthetases
JP6116479B2 (en) 2010-07-12 2017-04-19 エータイアー ファーマ， インコーポレイテッド Innovative discovery of therapeutic, diagnostic and antibody compositions related to protein fragments of glycyl-tRNA synthetase
US9029506B2 (en) 2010-08-25 2015-05-12 Atyr Pharma, Inc. Innovative discovery of therapeutic, diagnostic, and antibody compositions related to protein fragments of tyrosyl-tRNA synthetases
CN103119175B (en) * 2010-09-20 2017-11-28 Seegene株式会社 Target nucleic acid sequence detection in solid phase using single labelled immobilization probe and exonuclease activity
AU2012205884A1 (en) 2011-01-14 2013-08-29 Keygene N.V. Paired end random sequence based genotyping
RU2564122C2 (en) 2011-02-24 2015-09-27 Хилл'С Пет Ньютришн, Инк. Diagnostic technique and kit for diagnosing glomerulonephitis in cat
US20120252682A1 (en) 2011-04-01 2012-10-04 Maples Corporate Services Limited Methods and systems for sequencing nucleic acids
RU2593952C2 (en) 2011-06-15 2016-08-10 Хилл'С Пет Ньютришн, Инк. Compositions and methods for diagnosing and monitoring hyperthyroidism in felines
US9725765B2 (en) 2011-09-09 2017-08-08 The Board Of Trustees Of The Leland Stanford Junior University Methods for obtaining a sequence
WO2013040251A2 (en) 2011-09-13 2013-03-21 Asurgen, Inc. Methods and compositions involving mir-135b for distinguishing pancreatic cancer from benign pancreatic disease
CN104039823A (en) 2011-12-19 2014-09-10 希尔氏宠物营养品公司 Compositions and methods for diagnosing and treating hyperthyroidism in companion animals
WO2013106737A1 (en) 2012-01-13 2013-07-18 Data2Bio Genotyping by next-generation sequencing
US9528107B2 (en) 2012-01-31 2016-12-27 Pacific Biosciences Of California, Inc. Compositions and methods for selection of nucleic acids
RU2659423C2 (en) 2012-02-16 2018-07-02 ЭйТИР ФАРМА, ИНК. Hystidil-trna-synthetase for treatment of autoimmune and inflammatory diseases
US11177020B2 (en) 2012-02-27 2021-11-16 The University Of North Carolina At Chapel Hill Methods and uses for molecular tags
GB2513024B (en) 2012-02-27 2016-08-31 Cellular Res Inc A clonal amplification method
PT2828218T (en) 2012-03-20 2020-11-11 Univ Washington Through Its Center For Commercialization Methods of lowering the error rate of massively parallel dna sequencing using duplex consensus sequencing
WO2014085434A1 (en) 2012-11-27 2014-06-05 Pontificia Universidad Catolica De Chile Compositions and methods for diagnosing thyroid tumors
EP2935585B1 (en) * 2012-12-21 2019-04-10 Nanyang Technological University Site-specific induction of bimolecular quadruplex-duplex hybrids and methods of using the same
WO2015025863A1 (en) * 2013-08-21 2015-02-26 富士レビオ株式会社 Method for measuring modified nucleobase using solid phase probe, and kit for same
US10018566B2 (en) 2014-02-28 2018-07-10 Ldip, Llc Partially encapsulated waveguide based sensing chips, systems and methods of use
EP3183367B1 (en) 2014-08-19 2019-06-26 Pacific Biosciences Of California, Inc. Compositions and methods for enrichment of nucleic acids
US10435685B2 (en) 2014-08-19 2019-10-08 Pacific Biosciences Of California, Inc. Compositions and methods for enrichment of nucleic acids
WO2016138427A1 (en) 2015-02-27 2016-09-01 Indx Lifecare, Inc. Waveguide-based detection system with scanning light source
BR112018007710A2 (en) 2015-10-18 2018-10-23 Affymetrix Inc multiallelic genotyping of single nucleotide polymorphisms and indels
CN109072294A (en) 2015-12-08 2018-12-21 特温斯特兰德生物科学有限公司 For the improvement adapter of dual sequencing, method and composition
SG11202003885UA (en) 2017-11-08 2020-05-28 Twinstrand Biosciences Inc Reagents and adapters for nucleic acid sequencing and methods for making such reagents and adapters
AU2019300172A1 (en) 2018-07-12 2021-01-28 Twinstrand Biosciences, Inc. Methods and reagents for characterizing genomic editing, clonal expansion, and associated applications
WO2020109412A1 (en) 2018-11-28 2020-06-04 Keygene N.V. Targeted enrichment by endonuclease protection
IL311084A (en) 2018-11-30 2024-04-01 Caris Mpi Inc Next-generation molecular profiling
EP3927840A1 (en) 2019-02-21 2021-12-29 Keygene N.V. Genotyping of polyploids
WO2020212580A1 (en) 2019-04-17 2020-10-22 Igenomix, S.L. Improved methods for the early diagnosis of uterine leiomyomas and leiomyosarcomas
AU2020397802A1 (en) 2019-12-02 2022-06-16 Caris Mpi, Inc. Pan-cancer platinum response predictor
WO2021116371A1 (en) 2019-12-12 2021-06-17 Keygene N.V. Semi-solid state nucleic acid manipulation
WO2021123062A1 (en) 2019-12-20 2021-06-24 Keygene N.V. Ngs library preparation using covalently closed nucleic acid molecule ends
US20230407366A1 (en) 2020-10-06 2023-12-21 Keygene N.V. Targeted sequence addition
EP4251761A1 (en) 2020-11-24 2023-10-04 Keygene N.V. Targeted enrichment using nanopore selective sequencing
EP4251750A1 (en) 2020-11-25 2023-10-04 Koninklijke Nederlandse Akademie van Wetenschappen Ribosomal profiling in single cells

Family Cites Families (54)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4675283A (en) * 1984-07-19 1987-06-23 Massachusetts Institute Of Technology Detection and isolation of homologous, repeated and amplified nucleic acid sequences
US4683202A (en) 1985-03-28 1987-07-28 Cetus Corporation Process for amplifying nucleic acid sequences
US4683195A (en) 1986-01-30 1987-07-28 Cetus Corporation Process for amplifying, detecting, and/or-cloning nucleic acid sequences
EP0224126A3 (en) 1985-11-25 1989-02-01 The University of Calgary Covalently linked complementary oligodeoxynucleotides as universal nucleic acid sequencing primer linkers
US4800159A (en) 1986-02-07 1989-01-24 Cetus Corporation Process for amplifying, detecting, and/or cloning nucleic acid sequences
US5093245A (en) 1988-01-26 1992-03-03 Applied Biosystems Labeling by simultaneous ligation and restriction
US5027877A (en) * 1988-04-14 1991-07-02 Bridgestone Corporation Off-the-road heavy duty pneumatic radial tire
US6107023A (en) 1988-06-17 2000-08-22 Genelabs Technologies, Inc. DNA amplification and subtraction techniques
US5512439A (en) 1988-11-21 1996-04-30 Dynal As Oligonucleotide-linked magnetic particles and uses thereof
CA2008096A1 (en) 1989-01-19 1990-07-19 Samuel Rose Nucleic acid amplification using single primer
US5508178A (en) 1989-01-19 1996-04-16 Rose; Samuel Nucleic acid amplification using single primer
WO1990008821A1 (en) 1989-01-31 1990-08-09 University Of Miami Microdissection and amplification of chromosomal dna
EP0495911A1 (en) 1989-10-16 1992-07-29 Genelabs Technologies, Inc. Non-specific dna amplification
CA2036946C (en) 1990-04-06 2001-10-16 Kenneth V. Deugau Indexing linkers
WO1992007095A1 (en) 1990-10-15 1992-04-30 Stratagene Arbitrarily primed polymerase chain reaction method for fingerprinting genomes
IL103267A (en) 1991-09-24 2004-07-25 Keygene Nv Process and kit for amplification of restriction fragment obtained from starting dna
WO1993014217A1 (en) * 1992-01-10 1993-07-22 Life Technologies, Inc. Use of predetermined nucleotides having altered base pairing characteristics in the amplification of nucleic acid molecules
EP0675966B1 (en) 1992-02-19 2004-10-06 The Public Health Research Institute Of The City Of New York, Inc. Novel oligonucleotide arrays and their use for sorting, isolating, sequencing, and manipulating nucleic acids
WO1993022457A1 (en) * 1992-04-24 1993-11-11 Massachusetts Institute Of Technology Screening for genetic variation
US5436142A (en) 1992-11-12 1995-07-25 Cold Spring Harbor Laboratory Methods for producing probes capable of distingushing variant genomic sequences
US6277606B1 (en) 1993-11-09 2001-08-21 Cold Spring Harbor Laboratory Representational approach to DNA analysis
US5837832A (en) * 1993-06-25 1998-11-17 Affymetrix, Inc. Arrays of nucleic acid probes on biological chips
US5650274A (en) * 1993-06-25 1997-07-22 Hitachi, Ltd. DNA analyzing method
US5759922A (en) * 1993-08-25 1998-06-02 Micron Technology, Inc. Control of etch profiles during extended overetch
JPH09507121A (en) * 1993-10-26 1997-07-22 アフィマックス テクノロジーズ ナームロゼ ベノートスハップ Nucleic acid probe array on biological chip
US6207373B1 (en) 1998-02-25 2001-03-27 Nanogen, Inc. Methods for determining nature of repeat units in DNA
US6027877A (en) 1993-11-04 2000-02-22 Gene Check, Inc. Use of immobilized mismatch binding protein for detection of mutations and polymorphisms, purification of amplified DNA samples and allele identification
CA2185902A1 (en) 1994-03-18 1995-09-28 Federick Ausubel Cleaved amplified rflp detection methods
US5851770A (en) 1994-04-25 1998-12-22 Variagenics, Inc. Detection of mismatches by resolvase cleavage using a magnetic bead support
WO1996005222A1 (en) * 1994-08-08 1996-02-22 Wisconsin Alumni Research Foundation Purification and pharmaceutical compositions containing type g botulinum neurotoxin
US5710000A (en) 1994-09-16 1998-01-20 Affymetrix, Inc. Capturing sequences adjacent to Type-IIs restriction sites for genomic library mapping
US6013445A (en) 1996-06-06 2000-01-11 Lynx Therapeutics, Inc. Massively parallel signature sequencing by ligation of encoded adaptors
US5565340A (en) 1995-01-27 1996-10-15 Clontech Laboratories, Inc. Method for suppressing DNA fragment amplification during PCR
EP0735144B1 (en) * 1995-03-28 2002-06-05 Japan Science and Technology Corporation Method for molecular indexing of genes using restriction enzymes
US5972693A (en) * 1995-10-24 1999-10-26 Curagen Corporation Apparatus for identifying, classifying, or quantifying DNA sequences in a sample without sequencing
DE69530215T2 (en) * 1995-12-12 2003-11-13 Nestle Sa ice cream
US5712127A (en) 1996-04-29 1998-01-27 Genescape Inc. Subtractive amplification
DE19620874A1 (en) * 1996-05-23 1997-11-27 Bmw Rolls Royce Gmbh Fuel injection for a staged gas turbine combustor
US5763239A (en) 1996-06-18 1998-06-09 Diversa Corporation Production and use of normalized DNA libraries
EP0941366A2 (en) 1996-11-06 1999-09-15 Whitehead Institute For Biomedical Research Biallelic markers
US6060245A (en) 1996-12-13 2000-05-09 Stratagene Methods and adaptors for generating specific nucleic acid populations
US6060240A (en) 1996-12-13 2000-05-09 Arcaris, Inc. Methods for measuring relative amounts of nucleic acids in a complex mixture and retrieval of specific sequences therefrom
CA2286864A1 (en) 1997-01-10 1998-07-16 Pioneer Hi-Bred International, Inc. Hybridization-based genetic amplification and analysis
US6027945A (en) 1997-01-21 2000-02-22 Promega Corporation Methods of isolating biological target materials using silica magnetic particles
EP0972078B1 (en) 1997-03-20 2005-06-01 Affymetrix, Inc. (a California Corporation) Iterative resequencing
WO1998056954A1 (en) 1997-06-13 1998-12-17 Affymetrix, Inc. Method to detect gene polymorphisms and monitor allelic expression employing a probe array
DK1032705T3 (en) * 1997-10-30 2012-03-26 Cold Spring Harbor Lab Probe arrays and methods for using probe arrays to distinguish DNA
US6033861A (en) 1997-11-19 2000-03-07 Incyte Genetics, Inc. Methods for obtaining nucleic acid containing a mutation
EP1047794A2 (en) * 1998-01-13 2000-11-02 BioChip Technologies GmbH Method for the detection or nucleic acid of nucleic acid sequences
US6306643B1 (en) 1998-08-24 2001-10-23 Affymetrix, Inc. Methods of using an array of pooled probes in genetic analysis
US6703228B1 (en) 1998-09-25 2004-03-09 Massachusetts Institute Of Technology Methods and products related to genotyping and DNA analysis
EP1001037A3 (en) 1998-09-28 2003-10-01 Whitehead Institute For Biomedical Research Pre-selection and isolation of single nucleotide polymorphisms
EP1165820B1 (en) * 1999-03-11 2008-08-20 ZeaChem Inc. Process for producing ethanol
US6906643B2 (en) * 2003-04-30 2005-06-14 Hewlett-Packard Development Company, L.P. Systems and methods of viewing, modifying, and interacting with “path-enhanced” multimedia

Also Published As

Publication number Publication date
EP1124990B1 (en) 2006-01-18
WO2000024939A1 (en) 2000-05-04
US20060063158A1 (en) 2006-03-23
US6361947B1 (en) 2002-03-26
DE69929542T2 (en) 2006-09-14
EP1124990A4 (en) 2003-03-12
DE69929542D1 (en) 2006-04-06
AU2144000A (en) 2000-05-15
US7267966B2 (en) 2007-09-11
EP1124990A1 (en) 2001-08-22
US20020142314A1 (en) 2002-10-03
JP2002528096A (en) 2002-09-03
CA2345441A1 (en) 2000-05-04

Similar Documents

Publication Publication Date Title
DE69929542D1 (en) COMPLEXITY MANAGEMENT AND ANALYSIS OF GENOMIC DNA
Yong et al. Profiling genome-wide DNA methylation
Gouil et al. Latest techniques to study DNA methylation
Karemaker et al. Single-cell DNA methylation profiling: technologies and biological applications
Madi et al. The determination of tissue‐specific DNA methylation patterns in forensic biofluids using bisulfite modification and pyrosequencing
Booth et al. Oxidative bisulfite sequencing of 5-methylcytosine and 5-hydroxymethylcytosine
Garrett-Bakelman et al. Enhanced reduced representation bisulfite sequencing for assessment of DNA methylation at base pair resolution
Kantlehner et al. A high-throughput DNA methylation analysis of a single cell
Oyola et al. Efficient depletion of host DNA contamination in malaria clinical sequencing
WO2003010328A3 (en) Complexity management of genomic dna
EP1362929A3 (en) Methods for genotyping
US20110237444A1 (en) Methods of mapping genomic methylation patterns
EP1102864A4 (en) Gel microdrops in genetic analysis
DE60045796D1 (en) TOTAL CHROMOSOME ANALYSIS OF PROTEIN-DNS INTERACTIONS
WO2002086163A8 (en) Methods for high throughput genome analysis using restriction site tagged microarrays
DK1034309T3 (en) Process for Preparation of Complex DNA Methylation Fingerprints
WO2003100012A3 (en) Microarrays and method for running hybridization reaction for multiple samples on a single microarray
Lao et al. mRNA-sequencing whole transcriptome analysis of a single cell on the Solid™ system
Balamurugan et al. Identification of spermatozoa by tissue‐specific differential DNA methylation using bisulfite modification and pyrosequencing
GB2384206A (en) Automated system for two-dimensional electrophoresis
Green et al. Developmental validation of VeriFiler™ Plus PCR Amplification Kit: A 6-dye multiplex assay designed for casework samples
Thomson et al. DNA immunoprecipitation semiconductor sequencing (DIP-SC-seq) as a rapid method to generate genome wide epigenetic signatures
WO2011063210A2 (en) Methods of mapping genomic methylation patterns
BR9914262A (en) Method for analyzing polynucleotides
WO2001026029A3 (en) Method and system for providing genotype clinical information over a computer network

Legal Events

Date Code Title Description
RER Ceased as to paragraph 5 lit. 3 law introducing patent treaties